Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006849.1 Hibiscus syriacus cultivar Beakdansim tig00017417_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81168
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:478 original size:18 final size:18
Alignment explanation
Indices: 455--507 Score: 97
Period size: 18 Copynumber: 2.9 Consensus size: 18
445 TTTCGTTCTG
455 GAATGATCAAAGAATTAA
1 GAATGATCAAAGAATTAA
473 GAATGATCAAAGAATTAA
1 GAATGATCAAAGAATTAA
*
491 GAACGATCAAAGAATTA
1 GAATGATCAAAGAATTA
508 GGATCAACTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.55, C:0.08, G:0.17, T:0.21
Consensus pattern (18 bp):
GAATGATCAAAGAATTAA
Found at i:1152 original size:19 final size:19
Alignment explanation
Indices: 1128--1234 Score: 124
Period size: 19 Copynumber: 5.6 Consensus size: 19
1118 ACTGTTCACG
1128 GTACTATTCATACCATATA
1 GTACTATTCATACCATATA
* *
1147 GTACTATTTAAACCATATA
1 GTACTATTCATACCATATA
* *
1166 GTACTATTTATACAATATA
1 GTACTATTCATACCATATA
* * * *
1185 ATACTATTTAAACCGTATA
1 GTACTATTCATACCATATA
*
1204 GTACTATTCATACAATATA
1 GTACTATTCATACCATATA
*
1223 GTATTATTCATA
1 GTACTATTCATA
1235 AAAACGTTTC
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 74 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.39
Consensus pattern (19 bp):
GTACTATTCATACCATATA
Found at i:1184 original size:38 final size:38
Alignment explanation
Indices: 1128--1230 Score: 161
Period size: 38 Copynumber: 2.7 Consensus size: 38
1118 ACTGTTCACG
*
1128 GTACTATTCATACCATATAGTACTATTTAAACCATATA
1 GTACTATTCATACAATATAGTACTATTTAAACCATATA
* * *
1166 GTACTATTTATACAATATAATACTATTTAAACCGTATA
1 GTACTATTCATACAATATAGTACTATTTAAACCATATA
*
1204 GTACTATTCATACAATATAGTATTATT
1 GTACTATTCATACAATATAGTACTATT
1231 CATAAAAACG
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.40
Consensus pattern (38 bp):
GTACTATTCATACAATATAGTACTATTTAAACCATATA
Found at i:8043 original size:100 final size:99
Alignment explanation
Indices: 7912--8126 Score: 258
Period size: 100 Copynumber: 2.2 Consensus size: 99
7902 ATCACTTCAA
7912 TTCAGTGATATATCTAACCATTGAAAGATGTTTTTGACCT-ATTCTTTAATG-AAAAC-TGAGCT
1 TTCAGTGATATATC-AACCATTGAAAGATGTTTTTGA-CTAATTCTTTAATGAAAAACGT-AGCT
**
7974 ATCATCA-ATGACCATTTAATGCACAATGACAAAAACTT
63 ATC-TCAGA-GACCATTTAATGCACAACAACAAAAACTT
* * * * *
8012 TTCAGTGATATATCAGACCATTTAATGATGTTTTTGACTAATTCTTTAATGAAAAACGTTGTTTT
1 TTCAGTGATATATCA-ACCATTGAAAGATGTTTTTGACTAATTCTTTAATGAAAAACGTAGCTAT
*
8077 CTCAGAGACCATTTAATGCACAACAACATAAACTT
65 CTCAGAGACCATTTAATGCACAACAACAAAAACTT
* *
8112 TTTAGTGATAAATCA
1 TTCAGTGATATATCA
8127 CTTTACTTCA
Statistics
Matches: 100, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
99 3 0.03
100 86 0.86
101 10 0.10
102 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (99 bp):
TTCAGTGATATATCAACCATTGAAAGATGTTTTTGACTAATTCTTTAATGAAAAACGTAGCTATC
TCAGAGACCATTTAATGCACAACAACAAAAACTT
Found at i:16999 original size:64 final size:65
Alignment explanation
Indices: 16896--17025 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 65
16886 TATGAACGGG
* *
16896 TCAACCAGTCAACCTGGTGTTGAGGGTAAAATTGGCCCAATAGGTCATGTGCAT-AAAAAATTAA
1 TCAACCAGTCAACCTGGTGTTGAGGGTAAAATTGACCCAATACGTCATGTGCATAAAAAAATTAA
* *
16960 TCAACCCGTCAACCTGGTGTTGATGGTAAAATTGACCCAATACGTCATGTGCATAAAAAAATTAA
1 TCAACCAGTCAACCTGGTGTTGAGGGTAAAATTGACCCAATACGTCATGTGCATAAAAAAATTAA
17025 T
1 T
17026 TAATTAGATC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
64 50 0.82
65 11 0.18
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (65 bp):
TCAACCAGTCAACCTGGTGTTGAGGGTAAAATTGACCCAATACGTCATGTGCATAAAAAAATTAA
Found at i:17886 original size:2 final size:2
Alignment explanation
Indices: 17879--17919 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
17869 AATTTAATTA
17879 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17920 ATTAATAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19004 original size:21 final size:21
Alignment explanation
Indices: 18980--19037 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
18970 ATATAAAATT
* *
18980 TGTCCCGAATGACCACATATA
1 TGTCTCGAATGACCACATAGA
*
19001 TGTCTCGAAGGACCACATAGA
1 TGTCTCGAATGACCACATAGA
19022 TGTCTCGAATGACCAC
1 TGTCTCGAATGACCAC
19038 TTCTTAAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (21 bp):
TGTCTCGAATGACCACATAGA
Found at i:19137 original size:21 final size:22
Alignment explanation
Indices: 19080--19138 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 22
19070 CAAATACGTG
*
19080 TCCCGAAGAACCGCATATATGA
1 TCCCGAAGAACCACATATATGA
* * **
19102 T-CCAAAGGATTACATATAT-A
1 TCCCGAAGAACCACATATATGA
19122 TCCCGAAGAACCACATA
1 TCCCGAAGAACCACATA
19139 GAACCCTCGA
Statistics
Matches: 27, Mismatches: 9, Indels: 3
0.69 0.23 0.08
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (22 bp):
TCCCGAAGAACCACATATATGA
Found at i:19979 original size:35 final size:35
Alignment explanation
Indices: 19940--20009 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
19930 TATCGCAAAA
*
19940 ATGGTACCGATACCACCACATT-GGTATCGATACCC
1 ATGGTACCGATACCACCAC-TTCAGTATCGATACCC
* *
19975 ATGGTACCGATACTATCACTTCAGTATCGATACCC
1 ATGGTACCGATACCACCACTTCAGTATCGATACCC
20010 CATGAAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (35 bp):
ATGGTACCGATACCACCACTTCAGTATCGATACCC
Found at i:24079 original size:2 final size:2
Alignment explanation
Indices: 24072--24105 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
24062 TGATCATTTA
24072 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24106 TCATTAATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27935 original size:17 final size:19
Alignment explanation
Indices: 27902--27940 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
27892 TTTTACAACT
27902 TATAGAACATTAAATA-TAA
1 TATAGAACA-TAAATATTAA
27921 TATAGAACA-AAATATTAA
1 TATAGAACATAAATATTAA
27939 TA
1 TA
27941 ATACATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
TATAGAACATAAATATTAA
Found at i:30258 original size:21 final size:21
Alignment explanation
Indices: 30234--30278 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
30224 TGATAAAAAA
*
30234 TTACCTAAAACATTATTATTT
1 TTACCTAAAACATCATTATTT
*
30255 TTACCTAAAACATCATTTTTT
1 TTACCTAAAACATCATTATTT
30276 TTA
1 TTA
30279 ACATTTCCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.49
Consensus pattern (21 bp):
TTACCTAAAACATCATTATTT
Found at i:30354 original size:23 final size:22
Alignment explanation
Indices: 30298--30370 Score: 105
Period size: 21 Copynumber: 3.4 Consensus size: 22
30288 GTAAGTGTCT
30298 AATAATAACAAAACCGGTAGAA
1 AATAATAACAAAACCGGTAGAA
* *
30320 AA-AATAAAAAAACCAGTAGCAA
1 AATAATAACAAAACCGGTAG-AA
30342 AATAATAACAAAACCGGTAG-A
1 AATAATAACAAAACCGGTAGAA
30363 AATAATAA
1 AATAATAA
30371 TGTTTTCGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
21 24 0.53
22 6 0.13
23 15 0.33
ACGTcount: A:0.63, C:0.12, G:0.11, T:0.14
Consensus pattern (22 bp):
AATAATAACAAAACCGGTAGAA
Found at i:34725 original size:53 final size:52
Alignment explanation
Indices: 34668--34785 Score: 132
Period size: 50 Copynumber: 2.3 Consensus size: 52
34658 AGCATAAATA
** * * *
34668 AAATTTCAGTGTGGGCACCATCAATAAAATCTGTGACCAATTGAAGAAAATTT
1 AAATTTCAG-GTGGGCACCATCAATAAAATAGGTGACAAATCGAAGAAAATTC
* *
34721 AAATTTCA-G-GGTCACCATCAATAAATTAGGTGACAAATCGAAGAAAATTC
1 AAATTTCAGGTGGGCACCATCAATAAAATAGGTGACAAATCGAAGAAAATTC
*
34771 AAATTTAAGGGTGGG
1 AAATTTCA-GGTGGG
34786 AAGATTCATG
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
50 41 0.77
51 1 0.02
52 1 0.02
53 10 0.19
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (52 bp):
AAATTTCAGGTGGGCACCATCAATAAAATAGGTGACAAATCGAAGAAAATTC
Found at i:34754 original size:50 final size:50
Alignment explanation
Indices: 34683--34782 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
34673 TCAGTGTGGG
** * * * *
34683 CACCATCAATAAAATCTGTGACCAATTGAAGAAAATTTAAATTTCAGGGT
1 CACCATCAATAAAATAGGTGACAAATCGAAGAAAATTCAAATTTAAGGGT
*
34733 CACCATCAATAAATTAGGTGACAAATCGAAGAAAATTCAAATTTAAGGGT
1 CACCATCAATAAAATAGGTGACAAATCGAAGAAAATTCAAATTTAAGGGT
34783 GGGAAGATTC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (50 bp):
CACCATCAATAAAATAGGTGACAAATCGAAGAAAATTCAAATTTAAGGGT
Found at i:36656 original size:137 final size:137
Alignment explanation
Indices: 36405--36657 Score: 429
Period size: 137 Copynumber: 1.8 Consensus size: 137
36395 AGTATCGACA
* *
36405 CTTTCAACATATCCGGTAGCTCTTTACTGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTT
1 CTTTCAACATATCCGGTAGCGCTTTACTGGTTTTGTCATTTAGAGACCGATTTTGTCATATTTTT
36470 ACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTAGCGATATAAC
66 ACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTAGCGATATAAC
36535 TTCTTCT
131 TTCTTCT
* * *
36542 CTTTTAACATATCCGGTAGCGCTTTACCT-GTTTTGTCATTTATAGACCGGTTTTGTCAT-TTGT
1 CTTTCAACATATCCGGTAGCGCTTTA-CTGGTTTTGTCATTTAGAGACCGATTTTGTCATATT-T
36605 TTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
64 TTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
36658 CAATATATCC
Statistics
Matches: 109, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
136 2 0.02
137 105 0.96
138 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (137 bp):
CTTTCAACATATCCGGTAGCGCTTTACTGGTTTTGTCATTTAGAGACCGATTTTGTCATATTTTT
ACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTAGCGATATAAC
TTCTTCT
Found at i:36770 original size:113 final size:112
Alignment explanation
Indices: 36550--36991 Score: 767
Period size: 112 Copynumber: 3.9 Consensus size: 112
36540 CTCTTTTAAC
*
36550 ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTGTTTACCTGTTA
1 ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTA
36615 TATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAAT
66 TATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAAT
*
36662 ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTTACATGTT
1 ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCA-TTTTTTTACCTGTT
*
36727 ATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTAAAT
65 ATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAAT
*
36775 ATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTA
1 ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTA
36840 TATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAAT
66 TATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAAT
* * * * *
36887 ATATCCAGTAGTGCTTTACCTGTTTTGTCATTTATAGTCTGGTTTTTTCATTTTTTTACCTGTTA
1 ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTA
** *
36952 TATTGTTATGGATTAATATATTTTTATAAAGTATCGACAC
66 TATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
36992 AAACCGACAA
Statistics
Matches: 314, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
112 206 0.66
113 108 0.34
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (112 bp):
ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTA
TATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAAT
Found at i:36941 original size:225 final size:224
Alignment explanation
Indices: 36550--36991 Score: 776
Period size: 225 Copynumber: 2.0 Consensus size: 224
36540 CTCTTTTAAC
*
36550 ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTGTTTACCTGTTA
1 ATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTGTTTACCTGTTA
*
36615 TATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTA
66 TATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCAGTAGCGCTTTA
*
36680 CCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTTACATGTTATATTGTTATGGATCGAT
131 CCTGTTTTGTCATTTATAGACCGGTTTTGTCA-TTTTTTTACATGTTATATTGTTATGGATCAAT
36745 ACATTTTTATAAAGTATCGACACTTTAAAT
195 ACATTTTTATAAAGTATCGACACTTTAAAT
*
36775 ATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTA
1 ATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTGTTTACCTGTTA
*
36840 TATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCAGTAGTGCTTTA
66 TATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCAGTAGCGCTTTA
* * * * *
36905 CCTGTTTTGTCATTTATAGTCTGGTTTTTTCATTTTTTTACCTGTTATATTGTTATGGATTAATA
131 CCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATA
*
36970 TATTTTTATAAAGTATCGACAC
196 CATTTTTATAAAGTATCGACAC
36992 AAACCGACAA
Statistics
Matches: 206, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
224 51 0.25
225 155 0.75
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (224 bp):
ATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTGTTTACCTGTTA
TATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCAGTAGCGCTTTA
CCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACATGTTATATTGTTATGGATCAATA
CATTTTTATAAAGTATCGACACTTTAAAT
Found at i:37523 original size:20 final size:21
Alignment explanation
Indices: 37479--37523 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
37469 TACGTTCATA
* *
37479 ATAAAATATTTAATAAGTTACT
1 ATAAAATATTT-ATAAGTAAAT
37501 ATAAAATATTT-TAAGTAAAT
1 ATAAAATATTTATAAGTAAAT
37521 ATA
1 ATA
37524 TATAATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
22 11 0.52
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (21 bp):
ATAAAATATTTATAAGTAAAT
Found at i:37599 original size:2 final size:2
Alignment explanation
Indices: 37592--37628 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
37582 TATTATTTTA
37592 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37629 AATTATAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37817 original size:39 final size:39
Alignment explanation
Indices: 37774--37884 Score: 120
Period size: 39 Copynumber: 2.8 Consensus size: 39
37764 TTTAAAAAAT
*
37774 AATTTAGAAGGTTGATGTGAAATAATTTAAGAAATTGAG
1 AATTTAGAACGTTGATGTGAAATAATTTAAGAAATTGAG
* *
37813 AATTTAGAACGTT-ATGGTGTCAA-AATTTAAGAAATTTAG
1 AATTTAGAACGTTGAT-GTG-AAATAATTTAAGAAATTGAG
* * *
37852 AATTTAGAATGTTAGA-GTAAAATAATTTGAGAA
1 AATTTAGAACGTT-GATGTGAAATAATTTAAGAA
37885 TTATGAATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
38 4 0.07
39 53 0.88
40 2 0.03
41 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.34
Consensus pattern (39 bp):
AATTTAGAACGTTGATGTGAAATAATTTAAGAAATTGAG
Found at i:39121 original size:2 final size:2
Alignment explanation
Indices: 39116--39140 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
39106 TTTTTTTACA
39116 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
39141 ATTTTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:39573 original size:2 final size:2
Alignment explanation
Indices: 39566--39594 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
39556 TTAAATGGAT
39566 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
39595 TCCAAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43071 original size:3 final size:3
Alignment explanation
Indices: 43063--43087 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
43053 TTGATGCATT
43063 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
43088 TCCAACACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:45302 original size:18 final size:17
Alignment explanation
Indices: 45240--45302 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
45230 AAAATTACAT
*
45240 AAATATAAAT-TTA-AA
1 AAATATTAATATTATAA
45255 ATAATATTAATTATTATAA
1 A-AATATTAA-TATTATAA
*
45274 AAATTAATAATATTATTAA
1 AAA-TATTAATATTA-TAA
45293 AAATATTAAT
1 AAATATTAAT
45303 TATTGATCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
15 1 0.03
16 7 0.18
17 1 0.03
18 16 0.41
19 14 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTAATATTATAA
Found at i:47579 original size:31 final size:31
Alignment explanation
Indices: 47528--47613 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 31
47518 CAGAGGTCAT
* *
47528 AAAGAACCTCGG-CAACTGTCCATAGGTCCC
1 AAAGAACCTAGGTAAACTGTCCATAGGTCCC
* *
47558 AAAGAACCTAGGTAAACTGTCCATATGTTCC
1 AAAGAACCTAGGTAAACTGTCCATAGGTCCC
** * *
47589 TTAGAACATAGGTATACTGTCCATA
1 AAAGAACCTAGGTAAACTGTCCATA
47614 TGTCTCGAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 11 0.23
31 36 0.77
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (31 bp):
AAAGAACCTAGGTAAACTGTCCATAGGTCCC
Found at i:47614 original size:31 final size:31
Alignment explanation
Indices: 47542--47665 Score: 124
Period size: 31 Copynumber: 4.0 Consensus size: 31
47532 AACCTCGGCA
* * * *
47542 ACTGTCCATAGGTCCCAAAGAACCTAGGTAA
1 ACTGTCCATATGTTCCAAAGAACATAGGTAT
**
47573 ACTGTCCATATGTTCCTTAGAACATAGGTAT
1 ACTGTCCATATGTTCCAAAGAACATAGGTAT
* *
47604 ACTGTCCATATGTCTCGAAAG-ACATAGATAAT
1 ACTGTCCATATGT-TCCAAAGAACATAGGT-AT
* **
47636 TCTGTCCATATGTTCCGTAGAACATAGGTA
1 ACTGTCCATATGTTCCAAAGAACATAGGTA
47666 ACCCTCGACT
Statistics
Matches: 75, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
31 50 0.67
32 25 0.33
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGTCCATATGTTCCAAAGAACATAGGTAT
Found at i:47661 original size:32 final size:31
Alignment explanation
Indices: 47573--47662 Score: 103
Period size: 32 Copynumber: 2.9 Consensus size: 31
47563 ACCTAGGTAA
* *
47573 ACTGTCCATATGTTCCTTAGAACATAGGTAT
1 ACTGTCCATATGTTCCGTAGAACATAGATAT
*
47604 ACTGTCCATATG-TCTCG-AAAGACATAGATAAT
1 ACTGTCCATATGTTC-CGTAGA-ACATAGAT-AT
*
47636 TCTGTCCATATGTTCCGTAGAACATAG
1 ACTGTCCATATGTTCCGTAGAACATAG
47663 GTAACCCTCG
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
30 4 0.08
31 20 0.41
32 21 0.43
33 4 0.08
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (31 bp):
ACTGTCCATATGTTCCGTAGAACATAGATAT
Found at i:48575 original size:64 final size:65
Alignment explanation
Indices: 48498--48660 Score: 179
Period size: 64 Copynumber: 2.5 Consensus size: 65
48488 CCCTTAACAT
* * * *
48498 GTGCATCGATGCACTACCCATGCATTGATACACAT-ATCACCTTCGATGTTT-TAATCTTAAGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACATAATCACATTCGATGTTTCCAATCTTAAGGG
48561 G
65 G
* * ** * *
48562 GTGTATCGATGCACTCCTTATGCATCGATGCAC-TAATTGCATTCGATGTTTCCATTTTTAAGGG
1 GTGCATCGATGCACTCC-TATGCATCGATACACATAATCACATTCGATGTTTCCAATCTTAAGGG
48626 G
65 G
*
48627 GTGCATCGATGCACTTCCTGTGCATCGATACACA
1 GTGCATCGATGCAC-TCCTATGCATCGATACACA
48661 CTGAACAATT
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
63 3 0.04
64 39 0.48
65 36 0.44
66 3 0.04
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (65 bp):
GTGCATCGATGCACTCCTATGCATCGATACACATAATCACATTCGATGTTTCCAATCTTAAGGGG
Found at i:52195 original size:31 final size:31
Alignment explanation
Indices: 52157--52280 Score: 85
Period size: 31 Copynumber: 4.0 Consensus size: 31
52147 TAAAGAACCT
*
52157 CTGTCCATAGGTCCCA-AAGAACCTAGGTAAA
1 CTGTCCATAGGT-CCATAAGAACATAGGTAAA
* * * *
52188 CTGTCCATATGTTCATTAGAACATAGGTATA
1 CTGTCCATAGGTCCATAAGAACATAGGTAAA
** *
52219 CTGTCCATATATCTCGA-AAG-ACATAGGTAATT
1 CTGTCCATAGGTC-C-ATAAGAACATAGGTAA-A
* *
52251 CTGTCCATATGTTCCGT-AGAACATAGGTAA
1 CTGTCCATA-GGTCCATAAGAACATAGGTAA
52281 CCCTCGACTC
Statistics
Matches: 73, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
30 2 0.03
31 45 0.62
32 23 0.32
33 3 0.04
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (31 bp):
CTGTCCATAGGTCCATAAGAACATAGGTAAA
Found at i:62880 original size:12 final size:12
Alignment explanation
Indices: 62863--62888 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62853 CACTAGAGCT
62863 ACGGGGAAAGAA
1 ACGGGGAAAGAA
62875 ACGGGGAAAGAA
1 ACGGGGAAAGAA
62887 AC
1 AC
62889 CTTATTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.12, G:0.38, T:0.00
Consensus pattern (12 bp):
ACGGGGAAAGAA
Found at i:63783 original size:21 final size:21
Alignment explanation
Indices: 63758--63797 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
63748 ACATAAAAGT
*
63758 TCATAAAAATTTAACATTTCA
1 TCATAAAAAGTTAACATTTCA
* *
63779 TCATATAAAGTTACCATTT
1 TCATAAAAAGTTAACATTT
63798 TGTTTCCCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (21 bp):
TCATAAAAAGTTAACATTTCA
Found at i:64252 original size:44 final size:45
Alignment explanation
Indices: 64121--64255 Score: 209
Period size: 45 Copynumber: 3.0 Consensus size: 45
64111 TACAACTTTC
* * *
64121 TTACCAATATACATATCATTTATCCCATAAGCTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATT
*
64166 TTACCAATATACTTACCATTTAATCCATAAGCTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATT
* *
64211 TTACCAATATACTTGCCA-TTATTCCATAAGCTCATAAGCTTATT
1 TTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATT
64255 T
1 T
64256 GCATGCTTAC
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
44 25 0.30
45 58 0.70
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.39
Consensus pattern (45 bp):
TTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATT
Found at i:68329 original size:16 final size:16
Alignment explanation
Indices: 68310--68371 Score: 106
Period size: 16 Copynumber: 3.8 Consensus size: 16
68300 TGAGTGTAGC
68310 TGATGTGTAGAGCTGT
1 TGATGTGTAGAGCTGT
68326 TGATGTGTAGAGCTGT
1 TGATGTGTAGAGCTGT
*
68342 TGATGTGTAGAGCTGC
1 TGATGTGTAGAGCTGT
68358 TGATGTGTATGAGC
1 TGATGTGTA-GAGC
68372 AGTTATAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
16 40 0.91
17 4 0.09
ACGTcount: A:0.19, C:0.08, G:0.37, T:0.35
Consensus pattern (16 bp):
TGATGTGTAGAGCTGT
Found at i:69912 original size:21 final size:20
Alignment explanation
Indices: 69866--69914 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
69856 GTTTTACCAA
*
69866 ATTATTCTTGACATATATTTT
1 ATTATT-TTAACATATATTTT
*
69887 -CTATTTTAACATATATCTTT
1 ATTATTTTAACATATAT-TTT
69907 ATTATTTT
1 ATTATTTT
69915 TAATCTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 10 0.43
20 7 0.30
21 6 0.26
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (20 bp):
ATTATTTTAACATATATTTT
Found at i:76147 original size:16 final size:15
Alignment explanation
Indices: 76126--76167 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
76116 AATAAATATC
76126 ATAAAATAATTTTTAA
1 ATAAAAT-ATTTTTAA
76142 ATAAAAT-TTTTTAA
1 ATAAAATATTTTTAA
*
76156 AAAAAATTATTT
1 ATAAAA-TATTT
76168 AGGTGTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 12 0.52
15 1 0.04
16 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAAAATATTTTTAA
Found at i:79106 original size:15 final size:15
Alignment explanation
Indices: 79086--79119 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
79076 AGAATAGAGG
*
79086 ATTTAGATTTTGAGA
1 ATTTAGAGTTTGAGA
79101 ATTTAGAGTTTGAGA
1 ATTTAGAGTTTGAGA
79116 ATTT
1 ATTT
79120 GAAAACTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (15 bp):
ATTTAGAGTTTGAGA
Found at i:79407 original size:117 final size:117
Alignment explanation
Indices: 79201--79542 Score: 474
Period size: 117 Copynumber: 2.9 Consensus size: 117
79191 TACTATTCAC
* * * * *
79201 GTAAAGGCACGTTCCTAGGGGCGCGCCTTCGATTATTTTGTCAGATAATATGTTATCATTGCTCT
1 GTAAAAGCGCGTTCCTAGGGGGGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCT
* * *
79266 ATTATGTCATTCATATCCCTCGGGGGTACTATTCATGTCAATACCCAAAGTG
66 ATTATGTCACTCATGTCCCTCGGGGGAACTATTCATGTCAATACCCAAAGTG
* * *
79318 GTAAAAGCGCGTTCCTAGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCGTTACCCT
1 GTAAAAGCGCGTTCCTAGGGGGGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCT
* * *
79383 ATTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTTAGTACCCAAAGTG
66 ATTATGTCACTCATGTCCCTCGGGGGAACTATTCATGTCAATACCCAAAGTG
* * * *
79435 GTGAAAGAGCATTCC-CGGAGGGGCGCCTTCGATTA-TTTGTCAGAGAATATGTTATCATTGCCC
1 GTAAAAGCGCGTTCCTAGG-GGGGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCC
* *
79498 TATTATGTCACTCATGTCCC-CCGGAGAACTATTCATGTCAATACC
65 TATTATGTCACTCATGTCCCTCGGGGGAACTATTCATGTCAATACC
79543 TATTATTTCT
Statistics
Matches: 199, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
115 20 0.10
116 48 0.24
117 131 0.66
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (117 bp):
GTAAAAGCGCGTTCCTAGGGGGGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCT
ATTATGTCACTCATGTCCCTCGGGGGAACTATTCATGTCAATACCCAAAGTG
Found at i:79772 original size:136 final size:137
Alignment explanation
Indices: 79428--80166 Score: 1077
Period size: 134 Copynumber: 5.5 Consensus size: 137
79418 TGTTAGTACC
* * * * *
79428 CAAAGTGGTGAAAGAGCATTCCCGGAGGGGCGCCTTCGATTA-TTTGTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCTGG-GGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
79492 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCAATACCTATTATTTCTGATG
65 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCAATACCTATTATTTCTGATG
79557 GGAC-TGG
130 GGACTTGG
79564 CAAAGTGGTGAAAGCGCGTTCCTGGGG-GCGCCTTCCATTATTTT-TCAGAGAATATGTTATCAT
1 CAAAGTGGTGAAAGCGCGTTCCTGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCAT
* * * * *
79627 TGCCCTATTATGCCACTCACGTCCCTCGGAGAACTATTTATGTTAATACCTATTATTTCTGATGG
66 TGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCAATACCTATTATTTCTGAT-G
79692 GGACTTGG
130 GGACTTGG
* *
79700 CAAAGTGGTGAAAGAGCGTTCCTGGGGCGCGTC-TCCA-TATTTTGTCAGAGAATATGTTATCAT
1 CAAAGTGGTGAAAGCGCGTTCCTGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCAT
* *
79763 TGCCCTATTATGTCACTCATGTCCCCCGAAGAAC-ATTCATGTC-ATA-CTATTATTTCTTATGG
66 TGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCAATACCTATTATTTCTGATGG
79825 GACTTGG
131 GACTTGG
*
79832 CAAAGTGGTGAAAGCGCGTTCCTGGGGCGCGCCTTCCATTATTTTGTCAAAGAATATG-T-TCAT
1 CAAAGTGGTGAAAGCGCGTTCCTGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCAT
*
79895 TGCCCTATTATGTC-CTCATGTCCCCC-GAGAACTATTCATGTCAGTACCTATTATTTCTGATGG
66 TGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCAATACCTATTATTTCTGATGG
79958 GACTTGG
131 GACTTGG
* *
79965 CAAAGTGGTG-AAG-GCGTTCCTGGGGGCGCGTCTTCTATTATTTTGTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCT-GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
* * *
80028 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATT-A-ATCAGTACCTATTA-TTCTGAGG
65 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCAATACCTATTATTTCTGATG
*
80090 GGACTTAG
130 GGACTTGG
* *
80098 C-AAGTGGTGAAAGCGCGTTCCCGGGG-GTACGCCTTCCATTATTTTGTCAGAGAATATATTATC
1 CAAAGTGGTGAAAGCGCGTTCCTGGGGCG--CGCCTTCCATTATTTTGTCAGAGAATATGTTATC
80161 ATTGCC
64 ATTGCC
80167 TCACTCATGT
Statistics
Matches: 550, Mismatches: 34, Indels: 40
0.88 0.05 0.06
Matches are distributed among these distances:
130 5 0.01
131 29 0.05
132 104 0.19
133 73 0.13
134 185 0.34
135 36 0.07
136 114 0.21
137 4 0.01
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (137 bp):
CAAAGTGGTGAAAGCGCGTTCCTGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCAT
TGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCAATACCTATTATTTCTGATGG
GACTTGG
Found at i:80033 original size:266 final size:274
Alignment explanation
Indices: 79428--80166 Score: 1113
Period size: 266 Copynumber: 2.7 Consensus size: 274
79418 TGTTAGTACC
* * * *
79428 CAAAGTGGTGAAAGAGCATTCCCGGAGGG-GCGCCTTCGATTA-TTTGTCAGAGAATATGTTATC
1 CAAAGTGGTGAAAGAGCGTTCCTGG-GGGCGCGTCTTCCATTATTTTGTCAGAGAATATGTTATC
79491 ATTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCAATACCTATTATTTCTGAT
65 ATTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTC-ATACCTATTATTTCTGAT
79556 GGGAC-TGGCAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCCTTCCATTATTTT-TCAGAGAATAT
129 GGGACTTGGCAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCCTTCCATTATTTTGTCAGAGAATAT
* * *
79619 GTTATCATTGCCCTATTATGCCACTCACGTCCCTCGGAGAACTATTTATGTTAATACCTATTATT
194 GTTATCATTGCCCTATTATGCCACTCACGTCCCTCCGAGAACTATTCATGTCAATACCTATTATT
79684 TCTGATGGGGACTTGG
259 TCTGATGGGGACTTGG
79700 CAAAGTGGTGAAAGAGCGTTCCT-GGGGCGCGTC-TCCA-TATTTTGTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGAGCGTTCCTGGGGGCGCGTCTTCCATTATTTTGTCAGAGAATATGTTATCA
* *
79762 TTGCCCTATTATGTCACTCATGTCCCCCGAAGAAC-ATTCATGTCATA-CTATTATTTCTTATGG
66 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCATACCTATTATTTCTGATGG
*
79825 GACTTGGCAAAGTGGTGAAAGCGCGTTCCTGGGGCGCGCCTTCCATTATTTTGTCAAAGAATATG
131 GACTTGGCAAAGTGGTGAAAGCGCGTTCCTGGGG-GCGCCTTCCATTATTTTGTCAGAGAATATG
* * *
79890 -T-TCATTGCCCTATTATGTC-CTCATGTCCC-CCGAGAACTATTCATGTCAGTACCTATTATTT
195 TTATCATTGCCCTATTATGCCACTCACGTCCCTCCGAGAACTATTCATGTCAATACCTATTATTT
79951 CTGAT-GGGACTTGG
260 CTGATGGGGACTTGG
*
79965 CAAAGTGGTG-AAG-GCGTTCCTGGGGGCGCGTCTTCTATTATTTTGTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGAGCGTTCCTGGGGGCGCGTCTTCCATTATTTTGTCAGAGAATATGTTATCA
* *
80028 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATT-A-ATCAGTACCTATTA-TTCTGAGG
66 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCA-TACCTATTATTTCTGATG
* *
80090 GGACTTAGC-AAGTGGTGAAAGCGCGTTCCCGGGGGTACGCCTTCCATTATTTTGTCAGAGAATA
130 GGACTTGGCAAAGTGGTGAAAGCGCGTTCCTGGGGG--CGCCTTCCATTATTTTGTCAGAGAATA
*
80154 TATTATCATTGCC
193 TGTTATCATTGCC
80167 TCACTCATGT
Statistics
Matches: 430, Mismatches: 22, Indels: 34
0.88 0.05 0.07
Matches are distributed among these distances:
263 8 0.02
264 14 0.03
265 49 0.11
266 136 0.32
267 37 0.09
268 58 0.13
269 29 0.07
270 73 0.17
271 5 0.01
272 21 0.05
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (274 bp):
CAAAGTGGTGAAAGAGCGTTCCTGGGGGCGCGTCTTCCATTATTTTGTCAGAGAATATGTTATCA
TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCATACCTATTATTTCTGATGG
GACTTGGCAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGT
TATCATTGCCCTATTATGCCACTCACGTCCCTCCGAGAACTATTCATGTCAATACCTATTATTTC
TGATGGGGACTTGG
Found at i:80302 original size:63 final size:61
Alignment explanation
Indices: 80215--80339 Score: 187
Period size: 63 Copynumber: 2.0 Consensus size: 61
80205 ATTATGTGAA
* *
80215 GTTTGAATAAATTGGATAAAATGTTATAAATAAATTGAATAAATGTGAAGTGATCAGTTGGTT
1 GTTTAAATAAATTGGATAAAATGTTATAAATAAATTG-ATAAATGTGAAGTGATAAG-TGGTT
* **
80278 GTTTAAATATATTGGATAAAATGTTATGGATAAATTGATAAATGTGAAGTGATAAGTGGTT
1 GTTTAAATAAATTGGATAAAATGTTATAAATAAATTGATAAATGTGAAGTGATAAGTGGTT
80339 G
1 G
80340 AGACATTGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 6 0.11
62 18 0.32
63 33 0.58
ACGTcount: A:0.40, C:0.01, G:0.22, T:0.37
Consensus pattern (61 bp):
GTTTAAATAAATTGGATAAAATGTTATAAATAAATTGATAAATGTGAAGTGATAAGTGGTT
Found at i:80424 original size:14 final size:14
Alignment explanation
Indices: 80405--80435 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
80395 TGATAAGTTG
80405 GTTTTAATGTATAT
1 GTTTTAATGTATAT
80419 GTTTTAATGTATAT
1 GTTTTAATGTATAT
80433 GTT
1 GTT
80436 AAGGATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (14 bp):
GTTTTAATGTATAT
Found at i:81126 original size:21 final size:21
Alignment explanation
Indices: 81102--81152 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
81092 GGTCTCATAA
81102 AACCCTGCGGGCTAGGAATAT
1 AACCCTGCGGGCTAGGAATAT
** *
81123 AACCCTGAAGGCTAGGAATGT
1 AACCCTGCGGGCTAGGAATAT
81144 -ACCCTGCGG
1 AACCCTGCGG
81153 AGATGACATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.27, C:0.25, G:0.29, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATAT
Done.